Pedobacter segetis sp. nov., a Novel Bacterium Isolated from Soil

A Gram-negative, motile by gliding, rod-shaped, aerobic bacterium, designated SD-b(T), was isolated from a soil sample collected on Dokdo Island, South Korea. A polyphasic approach based on phenotypic, phylogenetic, and genomic analyses was used to characterize the new isolate. Phylogenetic analysis of 16S rRNA gene sequence showed that strain SD-b(T) belonged to the family Sphingobacteriaceae and most closely related to Pedobacter psychrophilus P4487A(T) (95.9% similarity). The isolate contained MK-7 as the predominant respiratory quinone; its main polar lipid was phosphatidylethanolamine; and the major fatty acids were summed feature 3 (C-16:1 omega 7c/C-16:1 omega 6c; 32.0%), C-15:0 iso (19.1%), C-17:0 iso 3-OH (8.3%), and C-16:0 (8.2%). The draft genome had a length of 3,842,102 bp with a G+C content of 36.0 mol%, predicting 3282 coding sequences, 3 rRNA genes, 3 ncRNAs, and 36 tRNAs genes. The digital DNA-DNA hybridization and average nucleotide identity values between strain SD-b(T) and P. psychrophilus LMG 29436(T) were 22.0% and 78.9%, respectively. The results of phenotypic properties, genotypic distinctiveness, and chemotaxonomic features support the discrimination of SD-b(T) from its phylogenetic relatives. Pedobacter segetis sp. nov. is therefore proposed with SD-b(T) (= KCTC 82351(T) = JCM 34283(T)) as the type strain.

Automated summary

A new Gram-negative, motile by gliding, rod-shaped, aerobic bacterium SD-b(T) was isolated from a soil sample collected on Dokdo Island, South Korea. By using a polyphasic approach, the new isolate was characterized. Phylogenetic analysis based on 16S rRNA gene sequence showed that SD-b(T) belongs to the family Sphingobacteriaceae and is most closely related to Pedobacter psychrophilus P4487A(T). The distinct phenotypic and genotypic properties support the proposal of a new species, Pedobacter segetis sp. nov., with SD-b(T) as the type strain.